miRNA display CGI


Results 1 - 20 of 38 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
20535 5' -64.4 NC_004688.1 + 667 0.67 0.453574
Target:  5'- gCCGCccggagGGCgCGCAGGGCCCuuugaugcCUCCAGc- -3'
miRNA:   3'- -GGCG------CUG-GCGUCCCGGGc-------GAGGUCcc -5'
20535 5' -64.4 NC_004688.1 + 1943 0.74 0.14623
Target:  5'- gCCGCGGCCGUAGGGCaugaaguucacccggCCaaaguccccGC-CCAGGGa -3'
miRNA:   3'- -GGCGCUGGCGUCCCG---------------GG---------CGaGGUCCC- -5'
20535 5' -64.4 NC_004688.1 + 3270 0.71 0.25583
Target:  5'- aCGcCGAgUCGCGGGGCaaaguacaacuCCGCgCCAGGGa -3'
miRNA:   3'- gGC-GCU-GGCGUCCCG-----------GGCGaGGUCCC- -5'
20535 5' -64.4 NC_004688.1 + 5083 0.74 0.163551
Target:  5'- uUCGCGACCGuCAGGGugcggugcuCCCGCUUCAcGGc -3'
miRNA:   3'- -GGCGCUGGC-GUCCC---------GGGCGAGGUcCC- -5'
20535 5' -64.4 NC_004688.1 + 6698 0.66 0.489283
Target:  5'- gCCGCG-CCGCcGcGGCCCaccaggaucuCUUCGGGGc -3'
miRNA:   3'- -GGCGCuGGCGuC-CCGGGc---------GAGGUCCC- -5'
20535 5' -64.4 NC_004688.1 + 9840 0.72 0.208164
Target:  5'- cCCGCGGCUGCcguagcuacguccgcGGGCCCGC-CCGGa- -3'
miRNA:   3'- -GGCGCUGGCGu--------------CCCGGGCGaGGUCcc -5'
20535 5' -64.4 NC_004688.1 + 10774 0.68 0.402803
Target:  5'- cUCGuCGACCGagaCAGcGGCCUGaUCCAGGa -3'
miRNA:   3'- -GGC-GCUGGC---GUC-CCGGGCgAGGUCCc -5'
20535 5' -64.4 NC_004688.1 + 15036 0.68 0.378805
Target:  5'- gUGCGGCCcgaAGGguaaGCCCGCUCUggcGGGGu -3'
miRNA:   3'- gGCGCUGGcg-UCC----CGGGCGAGG---UCCC- -5'
20535 5' -64.4 NC_004688.1 + 16948 0.66 0.488374
Target:  5'- uUCGgGGCCGCuggcGGGCUUcaacacgGCgCCGGGGa -3'
miRNA:   3'- -GGCgCUGGCGu---CCCGGG-------CGaGGUCCC- -5'
20535 5' -64.4 NC_004688.1 + 17044 0.73 0.184451
Target:  5'- cUCGCcGCCGUuuGGGCCCGa-CCAGGGc -3'
miRNA:   3'- -GGCGcUGGCGu-CCCGGGCgaGGUCCC- -5'
20535 5' -64.4 NC_004688.1 + 17863 0.67 0.411014
Target:  5'- gUGCGGCgGCgAGGGCgCGUgcggUCuCAGGGu -3'
miRNA:   3'- gGCGCUGgCG-UCCCGgGCG----AG-GUCCC- -5'
20535 5' -64.4 NC_004688.1 + 19882 0.7 0.30599
Target:  5'- uCCGcCGuucaCGUAGGcGCCCGCcgUCAGGGu -3'
miRNA:   3'- -GGC-GCug--GCGUCC-CGGGCGa-GGUCCC- -5'
20535 5' -64.4 NC_004688.1 + 20310 0.67 0.453574
Target:  5'- gCCGaggcCGACCGCGGGGUCgGC--CAGGu -3'
miRNA:   3'- -GGC----GCUGGCGUCCCGGgCGagGUCCc -5'
20535 5' -64.4 NC_004688.1 + 20573 0.66 0.486559
Target:  5'- -aGCGGCuugucguagCGCAGGGCgUCGaccagcggcgugccCUCCAGGGc -3'
miRNA:   3'- ggCGCUG---------GCGUCCCG-GGC--------------GAGGUCCC- -5'
20535 5' -64.4 NC_004688.1 + 20895 0.66 0.471257
Target:  5'- gCCgGCGACCGCAacggccguGGGCgCCGUggcgaaCAGcGGg -3'
miRNA:   3'- -GG-CGCUGGCGU--------CCCG-GGCGag----GUC-CC- -5'
20535 5' -64.4 NC_004688.1 + 24215 0.69 0.348333
Target:  5'- gUCGCGcCCGUGGGGaCCGUUgccggugcCCGGGGc -3'
miRNA:   3'- -GGCGCuGGCGUCCCgGGCGA--------GGUCCC- -5'
20535 5' -64.4 NC_004688.1 + 25041 0.67 0.411014
Target:  5'- aUCGCGACUGgGGaaGGCCUcCaCCAGGGg -3'
miRNA:   3'- -GGCGCUGGCgUC--CCGGGcGaGGUCCC- -5'
20535 5' -64.4 NC_004688.1 + 25529 0.66 0.4975
Target:  5'- uCUGCccagGACCGCcGGGUgacccaCCGCcacccauUCCGGGGa -3'
miRNA:   3'- -GGCG----CUGGCGuCCCG------GGCG-------AGGUCCC- -5'
20535 5' -64.4 NC_004688.1 + 26066 0.77 0.104916
Target:  5'- gCCGC-ACCGCccgcagcaccgGGGGCaCgGCUCCGGGGa -3'
miRNA:   3'- -GGCGcUGGCG-----------UCCCG-GgCGAGGUCCC- -5'
20535 5' -64.4 NC_004688.1 + 27550 0.66 0.462371
Target:  5'- aCGgGGuCCaGC-GGGCCCGg-CCGGGGa -3'
miRNA:   3'- gGCgCU-GG-CGuCCCGGGCgaGGUCCC- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.